ENSMUSG00000034940

1 Isoform Switch

Summary Plot

Only the isoforms with fraction > 5% are shown below.

  • Note:

    • About the Coding Potential: Please check the spreadsheet in the “Results” tag to confirm the coding potential. The above figure only show the predicted coding potential. The “gene_biotype” in the result spreadsheet is from the database record. Therefore, if you find conflicts between “gene_biotype” and “codingPotential”, please trust the “gene_biotype”.

    • Notes on IDR and IDR_w_binding: As the prediction of Intrinsically Disordered Regions (IDR) and Intrinsically Disordered Binding Regions (IDBR) are done by two different tools we require two things to annotate the Intrinsically Disordered Binding Regions (IDBR). Firstly the IDBR (predicted by ANCHOR2) must be a region of at least 15 amino acids (after the smoothing). Secondly the fraction of the IDBR which overlaps the IDR predictions (done by IUPred3, again after smoothing) must be at least 80%. When that is the case the IDR type will be annotated as “IDR_w_binding_region” instead of just “IDR”. The current default parameters have not been rigorously tested and should be considered experimental.

    • For the function of any other domain, please Click HERE to search it through Pfam database.

Results

isoform_id gene_id condition_1 condition_2 gene_name gene_biotype iso_biotype gene_overall_mean gene_value_1 gene_value_2 gene_stderr_1 gene_stderr_2 gene_log2_fold_change iso_overall_mean iso_value_1 iso_value_2 iso_stderr_1 iso_stderr_2 iso_log2_fold_change IF_overall IF1 IF2 dIF isoform_switch_q_value gene_switch_q_value PTC codingPotential
ENSMUST00000092834 ENSMUSG00000034940 Control shVgll3 Synrg protein_coding protein_coding 4.641496 4.670318 4.612675 0.2996501 0.8964256 -0.01787851 0.6161095 1.0559971 0.1762218 0.1028930 0.09525691 -2.51710954 0.13106667 0.22903333 0.03310000 -0.19593333 0.0007579903 0.0007579903 FALSE TRUE
ENSMUST00000138676 ENSMUSG00000034940 Control shVgll3 Synrg protein_coding protein_coding 4.641496 4.670318 4.612675 0.2996501 0.8964256 -0.01787851 0.2039174 0.0000000 0.4078348 0.0000000 0.40783485 5.38486091 0.03228333 0.00000000 0.06456667 0.06456667 0.9706656688 0.0007579903 FALSE FALSE
ENSMUST00000148901 ENSMUSG00000034940 Control shVgll3 Synrg protein_coding protein_coding_CDS_not_defined 4.641496 4.670318 4.612675 0.2996501 0.8964256 -0.01787851 0.4117292 0.8234585 0.0000000 0.4499463 0.00000000 -6.38103839 0.08616667 0.17233333 0.00000000 -0.17233333 0.6174404521 0.0007579903 FALSE TRUE
MSTRG.3996.10 ENSMUSG00000034940 Control shVgll3 Synrg protein_coding   4.641496 4.670318 4.612675 0.2996501 0.8964256 -0.01787851 0.8619624 0.3711725 1.3527524 0.3711725 0.35185998 1.83800768 0.18343333 0.08053333 0.28633333 0.20580000 0.6159099003 0.0007579903 FALSE TRUE
MSTRG.3996.3 ENSMUSG00000034940 Control shVgll3 Synrg protein_coding   4.641496 4.670318 4.612675 0.2996501 0.8964256 -0.01787851 0.7465540 0.7687775 0.7243306 0.7687775 0.57706242 -0.08478147 0.18053333 0.14733333 0.21373333 0.06640000 0.9706656688 0.0007579903 FALSE TRUE
MSTRG.3996.6 ENSMUSG00000034940 Control shVgll3 Synrg protein_coding   4.641496 4.670318 4.612675 0.2996501 0.8964256 -0.01787851 1.3886222 1.4479641 1.3292804 0.7251405 0.67999665 -0.12249707 0.29305000 0.33060000 0.25550000 -0.07510000 1.0000000000 0.0007579903 FALSE TRUE
  • Note:
    • The comparisons made can be identified as “from ‘condition_1’ to ‘condition_2’”, meaning ‘condition_1’ is considered the ground state and ‘condition_2’ the changed state. This also means that a positive dIF value indicates that the isoform usage is increased in ‘condition_2’ compared to ‘condition_1’. Since the ‘isoformFeatures’ entry is the most relevant part of the switchAnalyzeRlist object, the most-used standard methods have also been implemented to work directly on isoformFeatures.

Help

Please Click HERE to learn more details about the results of IsoformSwitchAnalyzeR.

2 Differential Exon Usage

Counts

All exons whithin this gene region are shown and numbering below.

Expression

All exons whithin this gene region are shown and numbering below.

Splicing

All exons whithin this gene region are shown and numbering below.

Transcripts

All isoforms whithin this gene region are shown below.

Results

groupID featureID exonBaseMean dispersion pvalue padj seqnames start end width strand shVgll3 Control log2fold_Control_shVgll3
ENSMUSG00000034940 E001 0.0000000       11 83855254 83855270 17 +      
ENSMUSG00000034940 E002 0.6592568 0.0259658442 2.430384e-01   11 83855271 83855301 31 + 0.318 0.114 -1.843
ENSMUSG00000034940 E003 0.6592568 0.0259658442 2.430384e-01   11 83855302 83855311 10 + 0.318 0.114 -1.843
ENSMUSG00000034940 E004 2.2966188 0.0074680540 8.256907e-01 0.985326529 11 83855312 83855372 61 + 0.500 0.532 0.157
ENSMUSG00000034940 E005 2.1320411 0.0110787654 9.837868e-01 1.000000000 11 83862378 83862418 41 + 0.500 0.492 -0.036
ENSMUSG00000034940 E006 0.4982099 0.1717560047 7.081185e-01   11 83867906 83867908 3 + 0.134 0.205 0.742
ENSMUSG00000034940 E007 9.2155911 0.0047187487 6.704218e-01 0.960396036 11 83867909 83868027 119 + 0.984 1.026 0.156
ENSMUSG00000034940 E008 10.3690728 0.0030420020 5.954638e-01 0.951657704 11 83869746 83869876 131 + 1.085 1.026 -0.213
ENSMUSG00000034940 E009 5.4186068 0.0034376930 1.821667e-01 0.760822469 11 83872243 83872277 35 + 0.894 0.717 -0.699
ENSMUSG00000034940 E010 10.2090002 0.0019380114 1.591547e-01 0.728127157 11 83872278 83872348 71 + 1.122 0.974 -0.539
ENSMUSG00000034940 E011 14.1157293 0.0013912357 9.293985e-01 0.999303308 11 83873022 83873121 100 + 1.177 1.180 0.011
ENSMUSG00000034940 E012 6.2337558 0.0172024677 6.886614e-01 0.962918995 11 83873122 83873133 12 + 0.830 0.882 0.200
ENSMUSG00000034940 E013 27.2484514 0.0035472731 5.528094e-01 0.938331718 11 83876075 83876377 303 + 1.430 1.466 0.126
ENSMUSG00000034940 E014 2.9661280 0.0060562435 5.599738e-01 0.941104672 11 83877640 83877677 38 + 0.546 0.634 0.393
ENSMUSG00000034940 E015 13.8202216 0.0014322419 3.936822e-02 0.446249457 11 83877678 83877873 196 + 1.262 1.073 -0.674
ENSMUSG00000034940 E016 12.9760581 0.0015103448 3.966972e-01 0.889129007 11 83878739 83878816 78 + 1.187 1.105 -0.295
ENSMUSG00000034940 E017 19.2474702 0.0066785699 6.861361e-01 0.962918995 11 83880506 83880636 131 + 1.325 1.287 -0.135
ENSMUSG00000034940 E018 7.2498443 0.0194188467 9.776642e-01 1.000000000 11 83880637 83880661 25 + 0.914 0.915 0.006
ENSMUSG00000034940 E019 5.4323901 0.0041215180 9.686442e-01 1.000000000 11 83880662 83880702 41 + 0.806 0.807 0.004
ENSMUSG00000034940 E020 26.9652438 0.0007229427 1.226337e-01 0.671614737 11 83881521 83881769 249 + 1.500 1.394 -0.364
ENSMUSG00000034940 E021 0.3321731 0.3917306203 2.395348e-01   11 83881770 83882113 344 + 0.236 0.000 -10.843
ENSMUSG00000034940 E022 21.3535014 0.0009061818 8.026711e-01 0.981651838 11 83885155 83885288 134 + 1.361 1.338 -0.081
ENSMUSG00000034940 E023 0.1659033 0.0344275388 5.676666e-01   11 83892602 83892683 82 + 0.000 0.114 9.472
ENSMUSG00000034940 E024 20.8735854 0.0017926678 8.327244e-01 0.985483953 11 83892684 83892796 113 + 1.333 1.344 0.038
ENSMUSG00000034940 E025 11.1644333 0.0023543298 6.045788e-01 0.953021573 11 83892999 83893061 63 + 1.058 1.105 0.169
ENSMUSG00000034940 E026 102.3038605 0.0007634695 5.147556e-01 0.931492890 11 83899444 83900376 933 + 2.027 2.000 -0.091
ENSMUSG00000034940 E027 0.0000000       11 83910027 83910185 159 +      
ENSMUSG00000034940 E028 0.6599196 0.0183832557 2.410272e-01   11 83910186 83910416 231 + 0.318 0.114 -1.844
ENSMUSG00000034940 E029 46.4843822 0.0108617329 7.951329e-03 0.194591302 11 83910417 83910779 363 + 1.768 1.580 -0.638
ENSMUSG00000034940 E030 18.9204626 0.0208647459 4.965071e-01 0.926929422 11 83914087 83914250 164 + 1.333 1.266 -0.234
ENSMUSG00000034940 E031 6.2527233 0.0175391873 4.314063e-01 0.908477139 11 83915104 83915157 54 + 0.914 0.807 -0.411
ENSMUSG00000034940 E032 7.3674362 0.0585953651 7.248458e-02 0.579680107 11 83915821 83915917 97 + 0.754 1.026 1.042
ENSMUSG00000034940 E033 6.5626488 0.0040308091 4.679438e-01 0.919398249 11 83917444 83917480 37 + 0.830 0.915 0.326
ENSMUSG00000034940 E034 16.6173223 0.0016135041 8.002460e-01 0.981651838 11 83917481 83917592 112 + 1.235 1.252 0.057
ENSMUSG00000034940 E035 20.4376876 0.0028382316 6.329491e-01 0.956436787 11 83930037 83930147 111 + 1.310 1.344 0.116
ENSMUSG00000034940 E036 0.8270253 0.0158034767 1.037178e-02 0.220147104 11 83930482 83930517 36 + 0.447 0.000 -12.971
ENSMUSG00000034940 E037 1.4764690 0.0113369940 5.671042e-01 0.943533691 11 83930518 83930836 319 + 0.447 0.343 -0.580
ENSMUSG00000034940 E038 241.4681091 0.0001656342 4.710384e-05 0.004271478 11 83931623 83935404 3782 + 2.342 2.415 0.242

Help

Please Click HERE to learn more details about the results from DEXseq.